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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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) 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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $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' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ), 'gf_id' => 'ORTHO05D000808', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ), 'data_identifier' => 'ORTHO05D000808', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000808', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09420' => 'bna', 'A02p28230' => 'bna', 'A06p47460' => 'bna', 'A08p20020' => 'bna', 'A09p68160' => 'bna', 'A10p02410' => 'bna', 'Aa31LG1G9070' => 'aar', 'Aa31LG2G17060' => 'aar', 'Aa31LG2G17070' => 'aar', 'Aa31LG2G21900' => 'aar', 'Aa31LG5G3120' => 'aar', 'Aa31LG5G3130' => 'aar', 'Aa31LG5G3140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1503' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3812' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1425' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.269' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.271' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.318' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3869' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3870' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3881' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3894' => 'aag', 'Actinidia09546' => 'ach', 'Actinidia09548' => 'ach', 'Actinidia09549' => 'ach', 'Actinidia25789' => 'ach', 'Actinidia25790' => 'ach', 'Actinidia25793' => 'ach', 'Actinidia38941' => 'ach', 'Actinidia39904' => 'ach', 'Ah.04g155750' => 'amhyb', 'Ah.11g049750' => 'amhyb', 'Ah.11g049760' => 'amhyb', 'AL1G13460' => 'aly', 'AL1G13470' => 'aly', 'AL7G24030' => 'aly', 'AL8G15910' => 'aly', 'Aqoxy2G01558' => 'aox', 'Aqoxy5G00247' => 'aox', 'Aqoxy5G00248' => 'aox', 'Aqoxy5G02005' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1CGI2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4K1JMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6BVJ0B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8YA0Q1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9B8A4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B4CUFV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BF69ZZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DRB7XG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB14X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3IFPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KH5R1I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQ9BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RR2QSI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SU4J52' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SYKA4L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U9Q9TP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU0CZS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YW4YDB' => 'arhy', 'AT1G03880' => 'ath', 'AT1G03890' => 'ath', 'AT4G28520' => 'ath', 'AT5G44120' => 'ath', 'ATR0736G111' => 'atr', 'ATR0736G201' => 'atr', 'ATR0736G206' => 'atr', 'Atru.chr4.2055' => 'acertr', 'Atru.chr4.2056' => 'acertr', 'Atru.chr5.1692' => 'acertr', 'AUR62002139' => 'cqu', 'AUR62011869' => 'cqu', 'AUR62011873' => 'cqu', 'AUR62015569' => 'cqu', 'AUR62015570' => 'cqu', 'AUR62024712' => 'cqu', 'AUR62024716' => 'cqu', 'BcaB03g12577' => 'bca', 'BcaB07g30543' => 'bca', 'BcaC03g16628' => 'bca', 'BcaC05g24492' => 'bca', 'BcaC05g26433' => 'bca', 'BcaC06g31652' => 'bca', 'BcaC06g34592' => 'bca', 'BcaC07g38336' => 'bca', 'BcaC07g42223' => 'bca', 'BcaC09g51654' => 'bca', 'BolC1t01059H' => 'bol', 'BolC2t10506H' => 'bol', 'BolC5t29001H' => 'bol', 'BolC7t43205H' => 'bol', 'BolC8t52786H' => 'bol', 'BolC8t52787H' => 'bol', 'BraA01t00884Z' => 'bra', 'BraA02t07858Z' => 'bra', 'BraA06t27615Z' => 'bra', 'BraA08t33962Z' => 'bra', 'BraA09t42151Z' => 'bra', 'BraA10t42510Z' => 'bra', 'C01p10970' => 'bna', 'C02p44620' => 'bna', 'C05p02230' => 'bna', 'C07p26770' => 'bna', 'C08p10900' => 'bna', 'C08p52590' => 'bna', 'C08p52610' => 'bna', 'CAN.G1449.9' => 'can', 'CAN.G1745.3' => 'can', 'CAN.G1978.1' => 'can', 'CAN.G1978.2' => 'can', 'CAN.G1978.3' => 'can', 'CAN.G2237.1' => 'can', 'CAN.G638.58' => 'can', 'CAN.G896.4' => 'can', 'CAN.G896.5' => 'can', 'CAN.G896.6' => 'can', 'CANSAT01G0278' => 'cansat', 'CANSAT01G1166' => 'cansat', 'CANSAT01G2058' => 'cansat', 'CANSAT01G2247' => 'cansat', 'CANSAT01G3240' => 'cansat', 'CANSAT78G0971' => 'cansat', 'CANSAT78G2040' => 'cansat', 'CARHR003210' => 'chi', 'CARHR179150' => 'chi', 'CARHR236300' => 'chi', 'Carub.0001s0302' => 'cru', 'Carub.0001s0303' => 'cru', 'Carub.0007s1216' => 'cru', 'Carub.0008s0440' => 'cru', 'Carub.0008s0441' => 'cru', 'Carub.0246s0001' => 'cru', 'Carub.0246s0002' => 'cru', 'Ca_08677_v3' => 'car', 'Ca_08711_v3' => 'car', 'Ca_08712_v3' => 'car', 'Ca_08713_v3' => 'car', 'Ca_09681_v3' => 'car', 'Cc01_g18320' => 'ccan', 'Cc02_g08920' => 'ccan', 'Cc03_g05570' => 'ccan', 'CDE02G2087' => 'cde', 'CDE02G2370' => 'cde', 'CDE02G3202' => 'cde', 'CDE02G3918' => 'cde', 'CDE02G3970' => 'cde', 'CDE04G1534' => 'cde', 'CDE05G3487' => 'cde', 'CDE08G0112' => 'cde', 'CDE08G0585' => 'cde', 'CDE08G0803' => 'cde', 'CDE08G1483' => 'cde', 'CDE08G1519' => 'cde', 'CDE08G1559' => 'cde', 'Cfa002425' => 'cfa', 'Cfa002426' => 'cfa', 'Cfa002428' => 'cfa', 'Cfa002429' => 'cfa', 'Cfa002430' => 'cfa', 'Cfa022961' => 'cfa', 'Ciclev10004854m.g' => 'ccl', 'Ciclev10004871m.g' => 'ccl', 'Ciclev10023766m.g' => 'ccl', 'CiPaw.01G184100' => 'cil', 'CiPaw.01G184200' => 'cil', 'CiPaw.01G184400' => 'cil', 'CiPaw.03G264300' => 'cil', 'CiPaw.03G264400' => 'cil', 'CiPaw.03G264500' => 'cil', 'CiPaw.03G264700' => 'cil', 'CiPaw.04G186700' => 'cil', 'CiPaw.04G186900' => 'cil', 'ClCG00G005950' => 'cla', 'ClCG06G007020' => 'cla', 'ClCG07G001060' => 'cla', 'ClCG07G001070' => 'cla', 'COL.COLO4_05891' => 'col', 'COL.COLO4_15881' => 'col', 'Cpa.g.sc165.7' => 'cpa', 'Cpa.g.sc165.8' => 'cpa', 'Cpa.g.sc44.53' => 'cpa', 'CsaV3_2G012740' => 'csa', 'CsaV3_3G022240' => 'csa', 'CsaV3_3G022250' => 'csa', 'CsaV3_3G022260' => 'csa', 'CsaV3_3G022280' => 'csa', 'CsaV3_7G035050' => 'csa', 'CSS0013467' => 'camsi', 'CSS0040343' => 'camsi', 'CSS0042334' => 'camsi', 'DCAR_018483' => 'dca', 'DCAR_018484' => 'dca', 'DCAR_018485' => 'dca', 'DCAR_018487' => 'dca', 'Dinv03578' => 'din', 'Dinv06749' => 'din', 'Dinv08270' => 'din', 'Dinv08271' => 'din', 'Dinv15407' => 'din', 'Dinv22406' => 'din', 'Dinv29858' => 'din', 'Dinv34628' => 'din', 'Dinv34630' => 'din', 'Dinv34631' => 'din', 'Duzib151G0090' => 'dzi', 'ECA233G3498' => 'eca', 'ECA236G0417' => 'eca', 'ECA247G3362' => 'eca', 'ECA248G0359' => 'eca', 'ECA248G0525' => 'eca', 'ECA248G2272' => 'eca', 'EL10Ac3g05003' => 'bvu', 'EL10Ac3g05004' => 'bvu', 'EL10Ac4g09074' => 'bvu', 'EL10Ac5g10396' => 'bvu', 'EL10Ac5g10398' => 'bvu', 'Eucgr.B01551' => 'egr', 'Eucgr.B01553' => 'egr', 'Eucgr.H00153' => 'egr', 'Eucgr.H03042' => 'egr', 'FAN11G2276' => 'fan', 'FAN15G0366' => 'fan', 'FAN15G2856' => 'fan', 'FAN15G3246' => 'fan', 'FAN15G3741' => 'fan', 'FAN16G0412' => 'fan', 'FAN20G0919' => 'fan', 'FAN20G1952' => 'fan', 'FAN20G2304' => 'fan', 'FAN20G2880' => 'fan', 'FAN21G3352' => 'fan', 'FAN24G1055' => 'fan', 'FAN24G1187' => 'fan', 'FAN24G1267' => 'fan', 'FAN24G2096' => 'fan', 'FAN24G2154' => 'fan', 'FAN24G3418' => 'fan', 'FAN25G1859' => 'fan', 'FAN27G0240' => 'fan', 'FAN27G0394' => 'fan', 'FAN27G1588' => 'fan', 'FvH4_2g21390' => 'fve', 'FvH4_2g21400' => 'fve', 'FvH4_2g21410' => 'fve', 'FvH4_2g21420' => 'fve', 'FvH4_2g21430' => 'fve', 'FvH4_2g21440' => 'fve', 'FvH4_3g19080' => 'fve', 'Glyma.03G163400' => 'gma', 'Glyma.03G163467' => 'gma', 'Glyma.03G163533' => 'gma', 'Glyma.10G037100' => 'gma', 'Glyma.13G123500' => 'gma', 'Glyma.19G164800' => 'gma', 'Glyma.19G164900' => 'gma', 'Gohir.A08G045600' => 'ghi', 'Gohir.A10G111000' => 'ghi', 'Gohir.D08G056100' => 'ghi', 'Gohir.D10G156900' => 'ghi', 'Gorai.004G057200' => 'gra', 'Gorai.011G174400' => 'gra', 'GSVIVG01028337001' => 'vvi', 'GSVIVG01028338001' => 'vvi', 'GSVIVG01028341001' => 'vvi', 'HanXRQChr04g0112711' => 'han', 'HanXRQChr07g0196131' => 'han', 'HanXRQChr09g0254371' => 'han', 'HanXRQChr09g0254381' => 'han', 'HanXRQChr10g0280931' => 'han', 'HanXRQChr10g0288971' => 'han', 'HanXRQChr10g0288981' => 'han', 'HanXRQChr10g0301271' => 'han', 'HanXRQChr10g0301281' => 'han', 'HanXRQChr10g0301931' => 'han', 'HanXRQChr10g0301941' => 'han', 'HanXRQChr11g0336761' => 'han', 'HanXRQChr12g0380361' => 'han', 'Haze_11382' => 'cav', 'Haze_24632' => 'cav', 'Haze_24633' => 'cav', 'Haze_24636' => 'cav', 'Hma1.2p1_0273F.1_g109680' => 'hma', 'Hma1.2p1_0547F.1_g176550' => 'hma', 'Hma1.2p1_0576F.1_g182060' => 'hma', 'Hma1.2p1_0992F.1_g245200' => 'hma', 'HPP92_005415' => 'vpl', 'HPP92_007447' => 'vpl', 'Lalb_Chr02g0152421' => 'lal', 'Lalb_Chr21g0313861' => 'lal', 'Lalb_Chr21g0313871' => 'lal', 'Lalb_Chr25g0289961' => 'lal', 'Lj1A66T65' => 'lonja', 'Lj1C66T19' => 'lonja', 'Lj1g0006700' => 'lja', 'Lj1g0013396' => 'lja', 'Lj1g0020919' => 'lja', 'Lj2A40T57' => 'lonja', 'Lj2C1151T4' => 'lonja', 'Lj2C41T5' => 'lonja', 'Lj3A694T57' => 'lonja', 'Lj3C694T0' => 'lonja', 'Lj3C694T7' => 'lonja', 'Lj3g0006523' => 'lja', 'Lj3g0020847' => 'lja', 'Lj5g0013872' => 'lja', 'Lj5g0026904' => 'lja', 'Lsat_1_v5_gn_5_183421' => 'lsa', 'Lsat_1_v5_gn_5_183480' => 'lsa', 'Lsat_1_v5_gn_5_183501' => 'lsa', 'Lsat_1_v5_gn_5_64841' => 'lsa', 'Lsat_1_v5_gn_8_93140' => 'lsa', 'Lsat_1_v5_gn_8_93200' => 'lsa', 'Lsat_1_v5_gn_9_8420' => 'lsa', 'Manes.03G163900' => 'mes', 'Manes.12G032600' => 'mes', 'Manes.12G032700' => 'mes', 'Manes.12G043400' => 'mes', 'Manes.13G034300' => 'mes', 'Manes.13G034500' => 'mes', 'Manes.15G041200' => 'mes', 'MBI07_g16246_MAGBIO' => 'mbi', 'MBI07_g16247_MAGBIO' => 'mbi', 'MBI07_g16248_MAGBIO' => 'mbi', 'MBI07_g16249_MAGBIO' => 'mbi', 'MBI07_g16250_MAGBIO' => 'mbi', 'MBI07_g16251_MAGBIO' => 'mbi', 'MBI07_g16252_MAGBIO' => 'mbi', 'MBI07_g16253_MAGBIO' => 'mbi', 'MBI07_g16254_MAGBIO' => 'mbi', 'MBI07_g16255_MAGBIO' => 'mbi', 'MBI07_g16256_MAGBIO' => 'mbi', 'MBI07_g16257_MAGBIO' => 'mbi', 'MBI07_g16258_MAGBIO' => 'mbi', 'MBI07_g16259_MAGBIO' => 'mbi', 'MBI07_g16930_MAGBIO' => 'mbi', 'MBI07_g16931_MAGBIO' => 'mbi', 'MBI07_g16933_MAGBIO' => 'mbi', 'MBI07_g16934_MAGBIO' => 'mbi', 'MBI10_g08042_MAGBIO' => 'mbi', 'MBI10_g33518_MAGBIO' => 'mbi', 'MD01G1024700' => 'mdo', 'MD05G1196800' => 'mdo', 'MD05G1196900' => 'mdo', 'MD17G1078200' => 'mdo', 'Medtr1g069920' => 'mtr', 'Medtr1g072600' => 'mtr', 'Medtr1g072610' => 'mtr', 'Medtr1g072630' => 'mtr', 'Medtr7g096970' => 'mtr', 'Medtr7g096990' => 'mtr', 'Medtr7g097000' => 'mtr', 'MELO3C012886.2' => 'cme', 'MELO3C012887.2' => 'cme', 'MELO3C012888.2' => 'cme', 'MELO3C012889.2' => 'cme', 'MELO3C024414.2' => 'cme', 'Migut.D00425' => 'egut', 'Migut.D00426' => 'egut', 'Migut.G00511' => 'egut', 'Migut.G00513' => 'egut', 'Migut.G00514' => 'egut', 'Migut.N02205' => 'egut', 'Nitab4.5_0000044g0350' => 'nta', 'Nitab4.5_0000044g0370' => 'nta', 'Nitab4.5_0000326g0110' => 'nta', 'Nitab4.5_0000436g0260' => 'nta', 'Nitab4.5_0000470g0070' => 'nta', 'Nitab4.5_0000470g0090' => 'nta', 'Nitab4.5_0000470g0100' => 'nta', 'Nitab4.5_0000470g0120' => 'nta', 'Nitab4.5_0001327g0090' => 'nta', 'Nitab4.5_0001441g0090' => 'nta', 'Nitab4.5_0001441g0130' => 'nta', 'Nitab4.5_0001855g0030' => 'nta', 'Nitab4.5_0001855g0040' => 'nta', 'Nitab4.5_0001855g0060' => 'nta', 'Nitab4.5_0001855g0070' => 'nta', 'Nitab4.5_0004662g0040' => 'nta', 'Nitab4.5_0004662g0050' => 'nta', 'Nitab4.5_0006457g0010' => 'nta', 'Nn1g02727' => 'nnu', 'Nn1g02764' => 'nnu', 'Nn1g02765' => 'nnu', 'Nn1g02766' => 'nnu', 'Nn1g02767' => 'nnu', 'Nn1g02768' => 'nnu', 'Nn1g02770' => 'nnu', 'Nn1g02772' => 'nnu', 'Nn1g02775' => 'nnu', 'Nn1g02776' => 'nnu', 'Nn1g03035' => 'nnu', 'Nn1g07602' => 'nnu', 'Nn1g07603' => 'nnu', 'Nn2g11389' => 'nnu', 'Nn3g19658' => 'nnu', 'Nn3g19659' => 'nnu', 'Nn3g19662' => 'nnu', 'Nn4g23979' => 'nnu', 'Nn5g28091' => 'nnu', 'Nn5g28093' => 'nnu', 'Nn6g31700' => 'nnu', 'Oeu000629.1' => 'oeu', 'Oeu059422.1' => 'oeu', 'Os01g0761800' => 'osa', 'Os01g0762500' => 'osa', 'Os02g0242600' => 'osa', 'Os02g0248800' => 'osa', 'Os02g0249000' => 'osa', 'Os02g0249600' => 'osa', 'Os02g0249800' => 'osa', 'Os02g0249900' => 'osa', 'Os02g0268100' => 'osa', 'Os02g0268300' => 'osa', 'Os02g0453600' => 'osa', 'Os02g0456100' => 'osa', 'Os03g0427300' => 'osa', 'Os08g0127900' => 'osa', 'Os10g0400200' => 'osa', 'Peaxi162Scf00018g02017' => 'pax', 'Peaxi162Scf00829g00216' => 'pax', 'Peaxi162Scf00855g00014' => 'pax', 'Peaxi162Scf00855g00017' => 'pax', 'Peaxi162Scf00855g00229' => 'pax', 'Peaxi162Scf00855g00230' => 'pax', 'Peaxi162Scf01265g00114' => 'pax', 'Peaxi162Scf01265g00124' => 'pax', 'PGR031G2769' => 'pgr', 'PGR031G3551' => 'pgr', 'PGR044G2351' => 'pgr', 'PGSC0003DMG400010297' => 'stu', 'PGSC0003DMG400010320' => 'stu', 'PGSC0003DMG400010323' => 'stu', 'PGSC0003DMG400013452' => 'stu', 'PGSC0003DMG400017169' => 'stu', 'Phvul.007G192800' => 'pvu', 'Potri.001G308050' => 'ptr', 'Potri.002G038100' => 'ptr', 'Potri.005G224400' => 'ptr', 'Potri.005G224700' => 'ptr', 'Potri.019G004200' => 'ptr', 'Potri.019G004300' => 'ptr', 'Potri.019G004400' => 'ptr', 'Potri.019G004500' => 'ptr', 'Prupe.8G223300' => 'ppe', 'Prupe.8G223400' => 'ppe', 'Psat0s1923g0200' => 'psa', 'Psat3g055960' => 'psa', 'Psat3g056000' => 'psa', 'Psat3g058800' => 'psa', 'Psat4g138040' => 'psa', 'Psat6g054880' => 'psa', 'Psat6g054960' => 'psa', 'Psat6g055000' => 'psa', 'Psat6g055040' => 'psa', 'Psat6g055080' => 'psa', 'Psat6g125840' => 'psa', 'Psat6g138040' => 'psa', 'PSO017G5065' => 'pso', 'PSO063G4623' => 'pso', 'PSO170G0365' => 'pso', 'PSO170G3752' => 'pso', 'PSO170G4246' => 'pso', 'PSO210G1185' => 'pso', 'PSO210G7323' => 'pso', 'PSO478G3033' => 'pso', 'PSO541G1956' => 'pso', 'PSO541G3175' => 'pso', 'PSO541G3338' => 'pso', 'PSO541G5816' => 'pso', 'PSO675G2126' => 'pso', 'PSO675G2669' => 'pso', 'PSO675G3192' => 'pso', 'PSO675G4115' => 'pso', 'PSO675G5077' => 'pso', 'PSO675G6776' => 'pso', 'PSO675G7334' => 'pso', 'PSO732G0332' => 'pso', 'PSO732G0358' => 'pso', 'PSO782G2015' => 'pso', 'QL03p013222' => 'qlo', 'QL06p018087' => 'qlo', 'QL09p038783' => 'qlo', 'QL09p038825' => 'qlo', 'QL12p002164' => 'qlo', 'QL12p002170' => 'qlo', 'RcHm_v2.0_Chr6g0287991' => 'rch', 'RcHm_v2.0_Chr6g0288001' => 'rch', 'RcHm_v2.0_Chr6g0288021' => 'rch', 'RcHm_v2.0_Chr6g0288031' => 'rch', 'RcHm_v2.0_Chr6g0288041' => 'rch', 'RcHm_v2.0_Chr6g0288051' => 'rch', 'RcHm_v2.0_Chr6g0288071' => 'rch', 'Rhsim01G0263100' => 'rsi', 'Rhsim01G0263200' => 'rsi', 'Rhsim01G0263300' => 'rsi', 'Rhsim01G0263800' => 'rsi', 'Rhsim09G0137800' => 'rsi', 'Rhsim13G0035100' => 'rsi', 'Rhsim13G0035200' => 'rsi', 'Sabra05G0173100' => 'sbr', 'Sabra16G0193800' => 'sbr', 'Sabra16G0194000' => 'sbr', 'Sabra16G0194200' => 'sbr', 'Sabra16G0194400' => 'sbr', 'SalBow3G1097' => 'sbo', 'SalBow3G1714' => 'sbo', 'SalBow3G3119' => 'sbo', 'SalBow3G3956' => 'sbo', 'SalBow4G1542' => 'sbo', 'SalBow4G1826' => 'sbo', 'SalBow4G2279' => 'sbo', 'SalBow6G3101' => 'sbo', 'SalBow6G6296' => 'sbo', 'Sc07g0002180' => 'sci', 'Sc07g0002190' => 'sci', 'Sed0006402' => 'sed', 'Sed0008213' => 'sed', 'Sed0011349' => 'sed', 'Sed0013244' => 'sed', 'Sed0016838' => 'sed', 'Sed0020755' => 'sed', 'Sed0022682' => 'sed', 'Sed0025562' => 'sed', 'Sed0026431' => 'sed', 'SEGI_22448' => 'sgi', 'SEGI_25420' => 'sgi', 'SEGI_40664' => 'sgi', 'SGA_v2.0_scaffold109G31075' => 'sas', 'SGA_v2.0_scaffold138G35231' => 'sas', 'SGA_v2.0_scaffold155G37206' => 'sas', 'SGA_v2.0_scaffold1G00469' => 'sas', 'SGA_v2.0_scaffold1G00617' => 'sas', 'SGA_v2.0_scaffold265G46095' => 'sas', 'SGA_v2.0_scaffold2G00875' => 'sas', 'SGA_v2.0_scaffold4G02314' => 'sas', 'SGA_v2.0_scaffold67G22742' => 'sas', 'SGA_v2.0_scaffold67G22743' => 'sas', 'SGA_v2.0_scaffold771G53579' => 'sas', 'SGA_v2.0_scaffold8G04632' => 'sas', 'SHI09773' => 'shi', 'SMO240G0052' => 'smo', 'SMO340G0083' => 'smo', 'Solyc03g005580.2' => 'sly', 'Solyc09g025210.3' => 'sly', 'Solyc09g025220.2' => 'sly', 'Solyc09g072560.4' => 'sly', 'Solyc09g090150.4' => 'sly', 'Sopen03g001580' => 'spe', 'Sopen09g028300' => 'spe', 'Sopen09g028310' => 'spe', 'Sopen09g028330' => 'spe', 'Sopen09g028360' => 'spe', 'Sopen09g033070' => 'spe', 'Sp1g02740' => 'spa', 'Sp2g08950' => 'spa', 'Sp2g08960' => 'spa', 'Sp7g26500' => 'spa', 'SpUn0641_0010' => 'spa', 'TAR365G0135' => 'tar', 'TAR365G0684' => 'tar', 'TAR636G0243' => 'tar', 'TAR636G0472' => 'tar', 'TAR636G0607' => 'tar', 'THA.LOC104801153' => 'tha', 'THA.LOC104815965' => 'tha', 'THA.LOC104824683' => 'tha', 'THA.LOC104826044' => 'tha', 'Thecc.01G257900' => 'tca', 'Thecc.04G255700' => 'tca', 'Thecc.04G255800' => 'tca', 'Thecc.04G256000' => 'tca', 'Thhalv10003387m.g' => 'esa', 'Thhalv10003429m.g' => 'esa', 'Thhalv10009410m.g' => 'esa', 'Thhalv10009863m.g' => 'esa', 'Thhalv10027035m.g' => 'esa', 'Thhalv10029458m.g' => 'esa', 'TPR.G1570' => 'tpr', 'TPR.G1590' => 'tpr', 'TPR.G22314' => 'tpr', 'TWI09G0507' => 'twi', 'TWI12G0797' => 'twi', 'TWI18G0589' => 'twi', 'TWI18G0968' => 'twi', 'TWI53G0520' => 'twi', 'unitig_22.g5458' => 'ugi', 'unitig_22.g5459' => 'ugi', 'unitig_32.g10843' => 'ugi', 'unitig_32.g10844' => 'ugi', 'unitig_578.g16426' => 'ugi', 'unitig_748.g8308' => 'ugi', 'unitig_8.g3884' => 'ugi', 'unitig_8.g4704' => 'ugi', 'vmacro02662' => 'vma', 'vmacro02663' => 'vma', 'vmacro02664' => 'vma', 'vmacro14820' => 'vma', 'vmacro14821' => 'vma', 'vmacro15443' => 'vma', 'VMungo0720G2038' => 'vmu', 'Zm00001eb267120' => 'zma' ) $gf_id = 'ORTHO05D000808' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000808' ) $data_identifier = 'ORTHO05D000808' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 7, 'aag' => (int) 11, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 10, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 7, 'chi' => (int) 3, 'cru' => (int) 7, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 13, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 3, 'dca' => (int) 4, 'din' => (int) 10, 'dzi' => (int) 1, 'eca' => (int) 6, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 21, 'fve' => (int) 7, 'gma' => (int) 7, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 8, 'lja' => (int) 7, 'lsa' => (int) 7, 'mes' => (int) 7, 'mbi' => (int) 20, 'mdo' => (int) 4, 'mtr' => (int) 7, 'cme' => (int) 5, 'egut' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 21, 'oeu' => (int) 2, 'osa' => (int) 15, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 8, 'ppe' => (int) 2, 'psa' => (int) 12, 'pso' => (int) 22, 'qlo' => (int) 6, 'rch' => (int) 7, 'rsi' => (int) 7, 'sbr' => (int) 5, 'sbo' => (int) 9, 'sci' => (int) 2, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 12, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 6, 'vmu' => (int) 1, 'zma' => (int) 1 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb267120' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1